SKU: 13-2001
Pack size: 100 µL
  • Type:  Polyclonal
  • Host:  Rabbit
  • Applications: CUT&RUN, WB, IP
  • Reactivity:  Human, Mouse (Predicted Rat)
  • Format:  Antigen affinity-purified
  • Target Size:  49 kDa


This antibody meets EpiCypher’s “CUTANA Compatible” criteria for performance in Cleavage Under Targets and Release Using Nuclease (CUT&RUN) and/or Cleavage Under Targets and Tagmentation (CUT&Tag) approaches to genomic mapping. Every lot of a CUTANA Compatible antibody is tested in the indicated approach using EpiCypher optimized protocols and determined to yield peaks that show a genomic distribution pattern consistent with reported function(s) of the target protein. FOXA1 antibody produces CUT&RUN peaks above background primarily in intronic, intergenic, and promoter regions (Figure 1) that overlap with known FOXA1 DNA-binding motifs (Figure 2).

Validation Data

Figure 1: FOXA1 peaks in CUT&RUN
CUT&RUN was performed as described in Figure 5. Peaks were called with MACS2. (A) Heatmap showing FOXA1 peaks relative to IgG negative control antibody in aligned rows ranked by intensity (top to bottom) and colored such that red indicates high localized enrichment and blue denotes background signal. (B) The number of peaks that fall into distinct classes of functionally annotated genomic regions are shown.

Figure 2: FOXA1 transcription factor binding motif analysis in CUT&RUN
(A) Homer analysis determined that the FOXA1 consensus motif, represented as a sequence logo position weight matrix, was enriched under FOXA1 CUT&RUN peaks. (B) The number of FOXA1 peaks containing consensus motifs from panel A is represented by a Venn Diagram. (C) Gene browser shots were generated using the Integrative Genomics Viewer (IGV, Broad Institute). Three representative loci show overlap of FOXA1 peaks with consensus motifs.

Figure 3: Western blot data
Western analysis of FOXA1 in whole cell lysates from MCF-7 and HeLa cells using NETN lysis buffer. The indicated amounts (µg) of lysate were loaded onto 4-20% SDS-PAGE gel and analyzed under standard western blot conditions using FOXA1 antibody (0.1 µg/mL).

Figure 4: Immunoprecipitation of human FOXA1
EpiCypher FOXA1 antibody (6 µg) was used to immunoprecipitate whole cell lysates isolated from HeLa cells using NETN lysis buffer (1 mg per IP). A negative control IgG antibody and positive control antibody to a different FOXA1 epitope (Bethyl Laboratories) were also used to demonstrate specificity of the IP. Immunoprecipitates were loaded onto 4-20% SDS-PAGE gel (20% of IP loaded) and probed via western blot with EpiCypher FOXA1 antibody (1 µg/mL).

Figure 5: CUT&RUN Methods
CUT&RUN was performed on 500k MCF7 cells with 0.5 µg of either FOXA1/HNF3A or IgG negative control (EpiCypher 13-0042) antibodies using the CUTANA™ ChIC/CUT&RUN Kit v2.0 (EpiCypher 14-1048). Library preparation was performed with 5 ng of DNA (or the total amount recovered if less than 5 ng) using the CUTANA™ CUT&RUN Library Prep Kit (EpiCypher 14-1001/14-1002). Both kit protocols were adapted for high throughput Tecan liquid handling. Libraries were run on an Illumina NextSeq2000 with paired-end sequencing (2x50 bp). Sample sequencing depth was 2.5 million reads (FOXA1) and 2.4 million reads (IgG). Data were aligned to the hg19 genome using Bowtie2. Data were filtered to remove duplicates, multi-aligned reads, and ENCODE DAC Exclusion List regions.

Technical Information

Between amino acids 422 and 472
Stable for 1 year at 4°C from date of receipt
Antigen affinity-purified antibody in Tris-citrate/phosphate buffer pH 7-8, 0.09% sodium azide

Recommended Dilution

0.5 µg per reaction
Western Blot (WB):
1:2,000 - 1:10,000
Immunoprecipitation (IP):
2 - 10 µg/mg lysate

Gene & Protein Information

UniProt ID
Gene Name
Protein Name
Hepatocyte nuclear factor 3-alpha
Target Size
49 kDa
Alternate Names
HNF-3-alpha, HNF-3A, Forkhead box protein A1, Transcription factor 3A (TCF-3A), HNF3A, TCF3A

Documents & Resources

Additional Info

This product is provided for commercial sale under license from Bethyl Laboratories, Inc.

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